Re: [DIYbio] DNA extraction and DNA Barconding

Hello people,

I'm planning to perform a DNA extraction to do DNA barcoding analysis with a sample of food (bovine meat, I suppose). The DNA extraction part is for a public demonstration of DIYbio and a "first experiment" introduction - one past thread on this list helped figure out this.

The objetive is do a DIY extraction using common commercial products and a "normal" extraction using standard lab reagents, just for comparison before the public demonstration.

Cathal's blog have the best source of information regarding this subject I found so far - specially where to find some "ingredents".

I'll look for genomic DNA instead of only plasmids (I'm using this protocol), but the problem of where to find some reagents persists. The only one that is hard to obtain is indeed Tris.

My plan is try to use drugs like Toradol that is usually sold with "Thrometamine", what appears to be another name for our well known Tris. I don't know if the information about the % of thrometamine on the drug will be avaliable, But I'll try do something.
Do you know other better options? Maybe a more avaliable compund that might substitute Tris?

And about barcoding, I see that there is a still open debate about the use of barcodings because of the supposition that it might "replace" taxonomy. Some say it is only useful for "biodetection" of some species and that taxonomy need more complex work.

But my point is: if barcoding is only useful for biodetection, so why is needed to use only a particular DNA region present in all species? If the biodetection was the only goal, wouldn't be better compare whole genomes and trace a map of DNA disparities between all species? Of course, taking in acount the crescent feasibility ($ and time) of whole genome sequencing.

This way just a PCR and gel would be needed - and not sequencing for every barcode sample.

I know some of you have some experience on the subject. What do you think about it?

Otto

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